Whale phylogeny and rapid radiation events revealed using novel retroposed elements and their flanking sequences.
Whale phylogeny and rapid radiation events revealed using novel retroposed elements and their flanking sequences.
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使用新颖的逆向元素及其侧翼序列揭示鲸鱼系统发育和快速辐射事件
DOI：
10.1186/1471-2148-11-314
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发表时间：
2011-10-27
影响因子：
3.4
通讯作者：
Yang G
中科院分区：
文献类型：
--
作者：
Chen Z;Xu S;Zhou K;Yang G
关于鲸目动物（海豚、鼠海豚和鲸鱼）的系统发育关系，人们从形态学和分子生物学两方面提出了多种假设，并在近二十年来取得了很大进展。然而，关于某些鲸类类群（如河豚和海豚类物种）之间的关系仍然存在一些争议，需要通过更多的标记进一步解决，以努力解决系统发育中未解决的部分。结果额外的SINE插入和SINE侧翼序列分析支持鲸目、齿齿目、海豚科（海豚科+海豚科+海豚科）和海豚科的单系性。该研究支持了飞燕科和飞燕科+单齿鲨科之间的姐妹关系，并发现经典河豚和新一代的飞燕豚和小飞燕豚都是附肢动物。对分化时间的估计表明，在渐新世和中新世早期，齿齿科的基础谱系发生了快速分化，而在中新世中晚期和上新世，Delphinidae在一个狭窄的时间框架内发生了快速分化。结论发现了一些新的SINEs，可以将飞燕科与其他两个科（单齿兽科和飞燕科）区分开来，而后两个科的姊妹类群则通过SINEs侧翼序列进一步揭示。有趣的是，检测到一些异常的SINE插入的PCR扩增模式，这可以解释为潜在的祖先SINE多态性和不完整的谱系分类的结果。尽管少数基因座可能存在异常，但本研究表明，基于sine的方法在系统发育研究中是一个强大的工具。确定更多的sin元素来解决超科Delphinoidea和Delphinidae之间的关系，将是未来彻底解决鲸目动物系统发育关系的重要一步。
BackgroundA diversity of hypotheses have been proposed based on both morphological and molecular data to reveal phylogenetic relationships within the order Cetacea (dolphins, porpoises, and whales), and great progress has been made in the past two decades. However, there is still some controversy concerning relationships among certain cetacean taxa such as river dolphins and delphinoid species, which needs to be further addressed with more markers in an effort to address unresolved portions of the phylogeny.ResultsAn analysis of additional SINE insertions and SINE-flanking sequences supported the monophyly of the order Cetacea as well as Odontocete, Delphinoidea (Delphinidae + Phocoenidae + Mondontidae), and Delphinidae. A sister relationship between Delphinidae and Phocoenidae + Mondontidae was supported, and members of classical river dolphins and the generaTursiopsandStenellawere found to be paraphyletic. Estimates of divergence times revealed rapid divergences of basal Odontocete lineages in the Oligocene and Early Miocene, and a recent rapid diversification of Delphinidae in the Middle-Late Miocene and Pliocene within a narrow time frame.ConclusionsSeveral novel SINEs were found to differentiate Delphinidae from the other two families (Monodontidae and Phocoenidae), whereas the sister grouping of the latter two families with exclusion of Delphinidae was further revealed using the SINE-flanking sequences. Interestingly, some anomalous PCR amplification patterns of SINE insertions were detected, which can be explained as the result of potential ancestral SINE polymorphisms and incomplete lineage sorting. Although a few loci were potentially anomalous, this study demonstrated that the SINE-based approach is a powerful tool in phylogenetic studies. Identifying additional SINE elements that resolve the relationships in the superfamily Delphinoidea and family Delphinidae will be important steps forward in completely resolving cetacean phylogenetic relationships in the future.
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影响因子：
1.9
作者：
Geisler, Jonathan H.;Sanders, Albert E.
通讯作者：
Sanders, Albert E.
影响因子：
2.3
作者：
BARNES, LG
通讯作者：
BARNES, LG
冠鲸类基因组、形态学和古生物学数据的超级矩阵分析
影响因子：
3.4
作者：
Geisler JH;McGowen MR;Yang G;Gatesy J
通讯作者：
Gatesy J
DOI：
10.1098/rspb.2000.1385
发表时间：
2001-03-07
影响因子：
4.7
作者：
Hamilton, H;Caballero, S;Brownell, RL
通讯作者：
Brownell, RL
影响因子：
2.3
作者：
Heyning, JE
通讯作者：
Heyning, JE